Background Parameters adversely affecting the contiguity and accuracy of the assemblies
from Illumina next-generation sequencing (NGS) are well described. However, past studies …

This study characterized regions of DNA which remained unassembled by either PacBio
and Illumina sequencing technologies for seven bacterial genomes. Two genomes were …

Background De novo genome assembly can be challenging due to inherent properties of
the reads, even when using current state-of-the-art assembly tools based on de Bruijn …

Background Whole genome sequence construction is becoming increasingly feasible
because of advances in next generation sequencing (NGS), including increasing throughput …

Long read sequencing technologies now allow routine highly contiguous assembly of
bacterial genomes. However, because of the lower accuracy of some long read data, it is …

Background Current high-throughput sequencing technologies generate large numbers of
relatively short and error-prone reads, making the de novo assembly problem challenging …

De novo genome assembly is the process of reconstructing a complete genomic sequence
from countless small sequencing reads. Due to the complexity of this task, numerous …

The quality of microbial genome sequences has been a concern ever since the emergence
of genome sequencing. The quality of the genome assemblies is dependent on the …

The perceived “simplicity” of bacterial genomics (these genomes are small and easy to
assemble) feeds the decentralized state of the field where computational analysis standards …

Background Microbial genomes are largely comprised of protein coding sequences, yet
some genomes contain many pseudogenes caused by frameshifts or internal stop codons …